A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report generated on 2018-05-01, 00:23 based on data in:
/mnt/NAS/NASBIO1/DATA/GAMeR_DB/LISTERIA
General Statistics
Showing 4291 samples.
QUAST
QUAST is a quality assessment tool for genome assemblies, written by the Center for Algorithmic Biotechnology.
Assembly Statistics
Showing 1072 samples.
Number of Contigs
This plot shows the number of contigs found for each assembly, broken down by length.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Bowtie 2
Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing reads to long reference sequences.
This plot shows the number of reads aligning to the reference in different ways.
There are 3 possible types of alignment: SE Mapped uniquely: Read has only one occurence in the reference genome. SE Multimapped: Read has multiple occurence. * SE No aligned: Read has no occurence.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Trimmomatic
Trimmomatic is a flexible read trimming tool for Illumina NGS data.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
FastQC
FastQC is a quality control tool for high throughput sequence data, written by Simon Andrews at the Babraham Institute in Cambridge.
Sequence Quality Histograms
The mean quality value across each base position in the read. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Per Sequence Quality Scores
The number of reads with average quality scores. Shows if a subset of reads has poor quality. See the FastQC help.
Flat image plot. Toolbox functions such as highlighting / hiding samples will not work (see the docs).
Per Base Sequence Content
The proportion of each base position for which each of the four normal DNA bases has been called. See the FastQC help.